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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgtggtcttacataaacaatttatatatgttccatgttcaagggtgtttttaatctatcactattaacacagtagtccttgatgattttactgtcttttcccctctagAGGCAATGTGGACAAGAAGGAAGCACTAGAGAACTTGGATCTCATTCTATTGTGCATAGATGAAATTGTTGATGGCGGGTATGCTATATGCTATTCATAT

Basic information

species Glycine max
transcript GLYMA09G02270.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G02270.2 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os05g38610.1 (Oryza sativa), 3'ss of exon 3
gttgtggtcttacataaacaatttatatatgtt---ccatgttcaagggtgtttttaatctatcactattaacacagtagtccttgatgattttactgtcttttcccctctagAGGCAATGTGGACAAGAAGGAAGCACTAGAGAACTTGGATCTCATTCTATTGTGCATAGATGAAATTGTTGATGGCGGGTATGCTATATGCTATTCATAT
||| |  ||  || ||   ||| ||| | ||||   | |  ||  |   ||||||  || |||  |  |  ||    | |    |  |   ||| | || |  ||   |  |||   || || ||||| |    |||||| || ||  |||||||||| ||||||||| | ||||||||||||||||| ||                      
gttatactca-acctatttaatgtatctttgtttttctaccttttattttgttttacatttatgtccct--acctgattgcatgtattctgtttcccgtgtcatcggtttcagAAATAACGTCGACAAAAGAACAGCACTCGAAAATCTGGATCTCATCCTATTGTGCCTCGATGAAATTGTTGATGGAGG----------------------

upper sequence: GLYMA09G02270.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G431350_T01 (Zea mays), 3'ss of exon 3
gttgtggtcttacataaacaatttatatatgttccatgttcaagggtgtttttaatctatcactattaacacag-tagtccttga-tgattttactgtcttttcccctctagAGGCAATGTGGACAAGAAGGAAGCACTAGAGAACTTGGATCTCATTCTATTGTGCATAGATGAAATTGTTGATGGCGGGTATGCTATATGCTATTCATAT
||| |  ||   |    | | ||||| | ||   |   |     | | | ||  || |     | ||||  | | | ||   ||| ||  ||| |  ||||      |  |||  ||  || ||||| | |  |||||| ||||| |||||| | || ||||||||| | ||||||||||||||||| ||                      
gttattttccctctattaaactttatctttgcaaccactgttttgttctgttacatgttgttgtgttaatgctgattgtatatgaatgtgtttccaatcttggtggtttcagAAACATGGTTGACAAAAGGACAGCACTCGAGAATTTGGATATGATCCTATTGTGCCTTGATGAAATTGTTGATGGAGG----------------------

upper sequence: GLYMA09G02270.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv10s0003g02760.t01 (Vitis vinifera), 3'ss of exon 4
gttgtggtcttacataaacaatttata-tatgttccatgt-tcaagggtgtttttaat-ctatcactattaacacagtagtccttgatg----attttactgtcttttcccctctagAGGCAATGTGGACAAGAAGGAAGCACTAGAGAACTTGGATCTCATTCTATTGTGCATAGATGAAATTGTTGATGGCGGGTATGCTATATGCTATTCATAT
   ||  |||| ||  || ||||  || |||   | || | | ||  | | ||   ||  |    ||| ||| |    || | ||| |     ||||| |  |    |  | || || |||||||||||||||||||| ||||| |||||||||||| | ||||| || ||| | ||||||||| ||||||||||                      
---gta-tctttcaagaataattgttactattagcaatctcttaattgaggttcagatgttgatgctagtaatatgtgagcctttgttatctaattttgcc-tgcccttgcttccagGGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTTATGCCTTGATGAAATTATTGATGGCGG----------------------

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|151406134|gb|EV275949.1|EV275949
EST:     TTAGCCACAGTTCTGCAGGCATTTTTTGATTCTGTGGGCCTTCTGCTCAG                         AGGCAATGTGGACAAGAAGGAAGCACTAGAGAACTT
genomic: TTAGCCACAGTTCTGCAGGCATTTTTTGATTCTGTGGGCCTTCTGCTCAGgttgtggtct ... tcccctctagAGGCAATGTGGACAAGAAGGAAGCACTAGAGAACTT
EST: gi|298191889|gb|HO035971.1|HO035971
EST:     TTAGCCACAGTTCTGCAGGCATTTTTTGATTCTGTGGGCCTTCTGCTCAG                         AGGCAATGTGGACAAGAAGGAAGCACTAGAGAACTTGGATCTCATTCTATT
genomic: TTAGCCACAGTTCTGCAGGCATTTTTTGATTCTGTGGGCCTTCTGCTCAGgttgtggtct ... tcccctctagAGGCAATGTGGACAAGAAGGAAGCACTAGAGAACTTGGATCTCATTCTATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctatcactattaacacagtagtccttgatgattttactgtcttttcccctctagAGGCAATGTGGACAAGAAGGAAGCACTAGAGAACTTGGATCTCATTCTATTGTGCATAGATGAAATTGTTGATGGCGGGTATGCTATATGCTATTCATAT
                                ttttactgtcttttcc  CT-rich tract
                            atgatttta  TA-rich tract